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### Description
If an env named `venv_sct` predates running `./install_sct`, the installation will fail.
### Steps to Reproduce
1. Install miniconda from https://github.com/conda-forge/minifo…
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I would like to know how to use my trained model to segment data. I have trained ADS to my liking and I want to know how to use that to segment the batch of images I have. Does it do it automatically …
Paasu updated
2 years ago
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After testing #464 which gave me errors, I noticed that I wasn't able to reinstall ADS. After the pip install and venv activation, I get this whenever I try to run one of the CLI scripts:
Error:
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### Context
Researchers from University of Basel shared MP2RAGE data from 30 subjects with MS. Data include manual segmentation of MS lesions.
Data are under: `data.neuro.polymtl.ca:basel-mp2rag…
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When running `sct_run_batch`, user points to a dataset. The log file indicates the dataset that was used, e.g.:
~~~
sct_run_batch arguments were:
batch_log: sct_run_batch_log.txt
config: /home/jco…
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The CLI tests for our `default_SEM` are covered by AxonDeepSeg. However, our `default_TEM model` is not tested by the CLI see [here](https://github.com/neuropoly/axondeepseg/blob/3bcc87d29816d881dcc4b…
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**Description**
While doing some refactoring for the latest features, we missed something for model native resolution.
**To Reproduce**
For a model without a `Resample` transformation:
```
2022…
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Working branch on git-annex: `jca/update-groundtruth`.
P091 and P167 do not have manual MS lesion segmentation file. They should exist (even if they are empty).
# Batch commands
Run in folder…
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In order to run axondeepseg and ivadomed in the same environment, we would need to upgrade the following requirements:
`pillow==6.2.0` to at least `==7.0.0`
`scikit-learn==0.19.2` to at least `==0…
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Following the release of version 4, the models were updated on their respective repos:
https://github.com/axondeepseg/default-SEM-model
https://github.com/axondeepseg/default-TEM-model
https://gith…